Extreme breeding: Leveraging genomics for crop improvement

Journal of the Science of Food and Agriculture

Volumn 87, Issue 6, 2007, Pages 925-929

  Brady, Siobhan M ^a   Provart, Nicholas J ^b  

^a DUKE UNIVERSITY   (United States)

^b UNIVERSITY OF TORONTO   (Canada)

Author keywords

Array mapping; Association mapping; Ecotilling; Marker assisted breeding; QTL

Indexed keywords

ARABIDOPSIS;

EID: 34247466520     PISSN: 00225142     EISSN: 10970010     Source Type: Journal    
DOI: 10.1002/jsfa.2763     Document Type: Review

References (22)

1. Andersen JR and Lubberstedt T, Functional markers in plants. Trends Plant Sci 8:554-560 (2003).
2. Varshney RK, Graner A and Sorrells ME, Genomics-assisted breeding for crop improvement. Trends Plant Sci 10:621-630 (2005).
3. nd edition, ed. by Salinas J and Sanchez-Serrano JJ. Humana Press, Totowa, NJ, pp. 137-145 (2005).
4. Wolyn DJ, Borevitz JO, Loudet O, Schwartz C, Maloof J, Ecker JR, et al, Light-response quantitative trait loci identified with composite interval and eXtreme Array Mapping in Arabidopsis thaliana. Genetics 167:907-917 (2004).
5. Werner JD, Borevitz JO, Warthmann N, Trainer GT, Ecker JR, Chory J, et al, Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for natural flowering-time variation. Proc Natl Acad Sci USA 102:2460-2465 (2005).
6. Hazen SP, Borevitz JO, Harmon FG, Pruneda-Paz JL, Schultz TF, Yanovsky MJ, et al, Rapid Array Mapping of circadian clock and developmental mutations in Arabidopsis. Plant Physiol 138:990-997 (2005).
7. Ewing RM, Kahla AB, Poirot O, Lopez F, Audic S and Claverie J-M, Large-scale statistical analyses of rice ESTs reveal correlated patterns of gene expression. Genome Res 9:950-959 (1999).
8. Yamada K, Lim J, Dale JM, Chen H, Shinn P, Palm CJ, et al, Empirical analysis of transcriptional activity in the Arabidopsis genome. Science 302:842-846 (2003).
9. Rensink WA and Buell CR, Microarray expression profiling resources for plant genomics. Trends Plant Sci 10:603-609 (2005).
10. Aranzana MJ, Kim S, Zhao K, Bakker E, Horton M, Jakob K, et al, Genome-wide association mapping in Arabidopsis identifies previously known flowering time and pathogen resistance genes. PLoS Genetics 1:531-539 (2005).
11. Breseghello F and Sorrells ME, Association mapping of kernel size and milling quality in wheat (Triticum aestivum L.) cultivars. Genetics 172:1165-1177 (2006).
12. Flint-Garcia SA, Thuillet A-C, Yu J, Pressoir G, Romero SM, Mitchell SE, et al, Maize association population: a high-resolution platform for quantitative trait locus dissection. Plant J 44:1054-1064 (2005).
13. Yu J, Pressoir G, Briggs WH, Vroh Bi I, Yamasaki M, Doebley JF, et al, A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nat Genet 38:203-208 (2006).
14. Jurinke C, van den Boom D, Cantor CR and Koster H, The use of MassARRAY technology for high throughput genotyping. Adv Biochem Eng Biotechnol 77:57-74 (2002).
15. Gardiner J, Schroeder S, Polacco ML, Sanchez-Villeda H, Fang Z, Morgante M, et al, Anchoring 9,371 maize expressed sequence tagged unigenes to the bacterial artificial chromosome contig map by two-dimensional overgo hybridization. Plant Physiol 134:1317-1326 (2004).
16. Wright SI, Bi IV, Schroeder SG, Yamasaki M, Doebley JF, McMullen MD, et al, The effects of artificial selection on the maize genome. Science 308:1310-1314 (2005).
17. Comai L, Young K, Till BJ, Reynolds SH, Greene EA, Codomo CA, et al, Efficient discovery of DNA polymorphisms in natural populations by Ecotilling. Plant J 37:778-786 (2004).
18. Henikoff S, Till BJ and Comai L, TILLING. Traditional mutagenesis meets functional genomics. Plant Physiol 135:630-636 (2004).
19. Till BJ, Burtner C, Comai L and Henikoff S, Mismatch cleavage by single-strand specific nucleases. Nucl Acids Res 32:2632-2641 (2004).
20. Comai L and Henikoff S, TILLING: practical single-nucleotide mutation discovery. Plant J 45:684-694 (2006).
21. Till BJ, Reynolds SH, Greene EA, Codomo CA, Enns LC, Johnson JE, et al, Large-scale discovery of induced point mutations with high-throughput TILLING. Genome Res 13:524-530 (2003).
22. Till B, Reynolds S, Weil C, Springer N, Burtner C, Young K, et al, Discovery of induced point mutations in maize genes by TILLING. BMC Plant Biol 4:12 (2004).